DUF262 - PFAM28P - GREMLIN Contacts

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DUF262 - Protein of unknown function DUF262

PFAM:	PF03235	Sequences: ISELLSDIKQGFVIPDYQRPYVWDEEQVEDLLDDILEYRGYFLGSIVLWKDGEDGDGKYLVIDGQQRLTTLYLLLKATDEELEKDIKDLLYEIEDNKFEEDEERFKLEPRESDRDFFEKLIDDDKLELLDKLLLSELNSLKFKDLSEEEKDESEKRILEAYEFFKEKLKELLLDALLNKLKIVVIELEDDDDEDDAQEIFERLNSRGKPLSQADLLKAYLF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	221 (214)
Sequences:	29610 (25712)
Seq/√Len:	1757.7
META:	0.849

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
27_Q	208_K	3.770	1.00
24_D	27_Q	3.590	1.00
21_Y	70_T	3.171	1.00
13_V	58_K	2.862	1.00
30_D	206_R	2.668	1.00
61_V	68_L	2.535	1.00
13_V	60_L	2.446	1.00
86_I	93_I	2.352	1.00
22_V	208_K	2.071	1.00
163_F	167_K	2.033	1.00
86_I	89_L	1.991	1.00
48_L	61_V	1.978	1.00
90_L	93_I	1.901	1.00
17_Y	62_I	1.885	1.00
156_R	160_A	1.848	1.00
48_L	184_V	1.840	1.00
181_K	184_V	1.837	1.00
201_E	218_A	1.817	1.00
117_F	120_L	1.784	1.00
116_F	119_K	1.754	1.00
153_S	157_I	1.752	1.00
180_L	183_V	1.733	1.00
202_R	206_R	1.716	1.00
3_E	6_S	1.705	1.00
192_D	195_D	1.693	1.00
139_S	142_F	1.674	1.00
87_K	91_Y	1.628	1.00
160_A	163_F	1.624	1.00
89_L	93_I	1.616	1.00
113_D	116_F	1.613	1.00
157_I	160_A	1.604	1.00
31_L	71_L	1.591	1.00
182_I	188_E	1.583	1.00
114_R	117_F	1.582	1.00
172_L	175_A	1.563	1.00
183_V	187_L	1.560	1.00
133_L	136_E	1.528	1.00
114_R	118_E	1.510	1.00
106_K	109_P	1.493	1.00
113_D	117_F	1.490	1.00
91_Y	95_D	1.488	1.00
119_K	122_D	1.486	1.00
91_Y	94_E	1.481	1.00
164_F	167_K	1.464	1.00
115_D	119_K	1.462	1.00
133_L	137_L	1.432	1.00
25_E	29_E	1.423	1.00
173_L	177_L	1.413	1.00
47_V	203_L	1.409	1.00
117_F	121_I	1.398	1.00
85_D	89_L	1.397	1.00
134_L	137_L	1.390	1.00
167_K	171_L	1.390	1.00
87_K	90_L	1.374	1.00
153_S	160_A	1.361	1.00
131_K	134_L	1.353	1.00
118_E	121_I	1.345	1.00
132_L	136_E	1.339	1.00
32_L	74_L	1.337	1.00
183_V	186_E	1.330	1.00
48_L	59_Y	1.318	1.00
115_D	118_E	1.312	1.00
86_I	90_L	1.309	1.00
131_K	136_E	1.306	1.00
153_S	156_R	1.293	1.00
212_Q	215_L	1.282	1.00
28_V	160_A	1.280	1.00
198_E	202_R	1.279	1.00
118_E	122_D	1.278	1.00
90_L	94_E	1.276	1.00
151_D	154_E	1.275	1.00
28_V	70_T	1.266	1.00
161_Y	165_K	1.256	1.00
198_E	201_E	1.249	1.00
138_N	141_K	1.241	1.00
134_L	138_N	1.225	1.00
85_D	90_L	1.223	1.00
156_R	159_E	1.222	1.00
154_E	157_I	1.220	1.00
82_L	90_L	1.207	1.00
36_L	171_L	1.202	1.00
137_L	141_K	1.194	1.00
149_E	153_S	1.185	1.00
43_L	182_I	1.179	1.00
180_L	184_V	1.176	1.00
133_L	138_N	1.168	1.00
29_E	33_D	1.157	1.00
44_G	47_V	1.157	1.00
197_Q	201_E	1.150	1.00
109_P	113_D	1.147	1.00
82_L	89_L	1.138	1.00
119_K	123_D	1.136	1.00
141_K	144_D	1.133	1.00
83_E	91_Y	1.131	1.00
187_L	190_D	1.130	1.00
110_R	113_D	1.107	1.00
132_L	135_S	1.097	1.00
135_S	139_S	1.095	1.00
138_N	142_F	1.091	1.00
29_E	163_F	1.090	1.00
41_Y	47_V	1.087	1.00
157_I	161_Y	1.071	1.00
31_L	35_I	1.058	1.00
160_A	164_F	1.054	1.00
3_E	7_D	1.053	1.00
116_F	121_I	1.045	1.00
83_E	90_L	1.044	1.00
72_Y	76_K	1.043	1.00
116_F	120_L	1.040	1.00
107_L	110_R	1.036	1.00
185_I	188_E	1.034	1.00
135_S	138_N	1.034	1.00
82_L	85_D	1.033	1.00
87_K	92_E	1.032	1.00
109_P	116_F	1.032	1.00
215_L	218_A	1.022	1.00
83_E	86_I	1.022	1.00
137_L	142_F	1.016	1.00
92_E	95_D	1.013	1.00
124_D	127_E	1.013	1.00
180_L	187_L	1.011	1.00
85_D	88_D	1.008	1.00
184_V	187_L	1.002	1.00
167_K	170_E	0.992	1.00
110_R	116_F	0.989	1.00
123_D	127_E	0.988	1.00
34_D	41_Y	0.985	1.00
109_P	114_R	0.978	1.00
89_L	95_D	0.978	1.00
168_L	171_L	0.973	1.00
86_I	92_E	0.971	1.00
87_K	93_I	0.968	1.00
152_E	156_R	0.966	1.00
100_E	104_R	0.963	1.00
136_E	141_K	0.962	1.00
131_K	137_L	0.959	1.00
88_D	93_I	0.959	1.00
86_I	91_Y	0.957	1.00
133_L	139_S	0.953	1.00
132_L	138_N	0.951	1.00
140_L	144_D	0.949	1.00
21_Y	28_V	0.944	1.00
89_L	94_E	0.940	1.00
160_A	165_K	0.940	1.00
90_L	95_D	0.938	1.00
28_V	31_L	0.934	1.00
156_R	163_F	0.934	1.00
157_I	164_F	0.933	1.00
7_D	10_Q	0.933	1.00
111_E	114_R	0.925	1.00
83_E	89_L	0.924	1.00
182_I	185_I	0.916	1.00
103_E	106_K	0.911	1.00
59_Y	186_E	0.908	1.00
120_L	127_E	0.906	1.00
142_F	145_L	0.904	1.00
29_E	167_K	0.902	1.00
113_D	118_E	0.893	1.00
85_D	93_I	0.883	1.00
111_E	117_F	0.883	1.00
84_K	89_L	0.882	1.00
197_Q	216_L	0.878	1.00
183_V	188_E	0.876	1.00
117_F	122_D	0.875	1.00
125_K	128_L	0.873	1.00
8_I	11_G	0.868	1.00
43_L	71_L	0.868	1.00
88_D	95_D	0.859	1.00
89_L	92_E	0.854	1.00
40_G	181_K	0.850	1.00
26_E	30_D	0.847	1.00
85_D	92_E	0.847	1.00
124_D	128_L	0.847	1.00
153_S	161_Y	0.846	1.00
141_K	145_L	0.842	1.00
85_D	94_E	0.839	1.00
201_E	219_Y	0.836	1.00
187_L	199_I	0.835	1.00
158_L	162_E	0.834	1.00
82_L	86_I	0.828	1.00
30_D	33_D	0.821	1.00
161_Y	164_F	0.820	1.00
114_R	121_I	0.819	1.00
108_E	111_E	0.815	1.00
86_I	94_E	0.811	1.00
97_K	102_E	0.805	1.00
136_E	140_L	0.804	1.00
216_L	220_L	0.801	1.00
110_R	114_R	0.798	1.00
96_N	99_E	0.797	1.00
140_L	145_L	0.787	1.00
73_L	77_A	0.782	1.00
21_Y	69_T	0.780	1.00
159_E	163_F	0.778	1.00
136_E	139_S	0.776	1.00
60_L	196_A	0.773	1.00
165_K	169_K	0.773	1.00
174_D	178_N	0.762	1.00
49_W	196_A	0.759	1.00
112_S	115_D	0.752	1.00
97_K	101_D	0.751	1.00
182_I	186_E	0.751	1.00
113_D	122_D	0.750	1.00
109_P	117_F	0.749	1.00
172_L	176_L	0.743	1.00
163_F	166_E	0.743	1.00
107_L	113_D	0.740	1.00
139_S	144_D	0.740	1.00
139_S	143_K	0.738	1.00
45_S	185_I	0.737	1.00
122_D	125_K	0.733	1.00
83_E	88_D	0.729	1.00
28_V	164_F	0.728	1.00
111_E	116_F	0.721	1.00
101_D	106_K	0.719	1.00
134_L	141_K	0.715	1.00
82_L	93_I	0.713	1.00
178_N	181_K	0.711	1.00
82_L	87_K	0.708	1.00
173_L	176_L	0.704	1.00
49_W	60_L	0.703	1.00
103_E	107_L	0.697	1.00
17_Y	201_E	0.697	1.00
117_F	124_D	0.693	1.00
36_L	167_K	0.690	1.00
120_L	128_L	0.689	1.00
103_E	108_E	0.689	1.00
101_D	104_R	0.687	1.00
82_L	92_E	0.677	1.00
117_F	126_L	0.673	1.00
51_D	54_D	0.670	1.00
83_E	93_I	0.670	1.00
85_D	95_D	0.669	1.00
214_D	217_K	0.667	1.00
150_K	153_S	0.666	1.00
101_D	105_F	0.666	1.00
115_D	120_L	0.664	1.00
131_K	138_N	0.664	1.00
100_E	103_E	0.663	1.00
42_F	45_S	0.661	1.00
182_I	190_D	0.659	1.00
34_D	206_R	0.658	1.00
122_D	126_L	0.650	1.00
121_I	125_K	0.650	1.00
77_A	168_L	0.650	1.00
9_K	76_K	0.649	1.00
87_K	94_E	0.647	1.00
105_F	108_E	0.643	1.00
126_L	130_D	0.642	1.00
32_L	167_K	0.636	1.00
97_K	100_E	0.635	1.00
180_L	185_I	0.634	1.00
120_L	123_D	0.632	1.00
112_S	116_F	0.629	1.00
118_E	123_D	0.627	1.00
197_Q	218_A	0.627	1.00
22_V	214_D	0.623	1.00
121_I	124_D	0.622	1.00
110_R	117_F	0.622	1.00
132_L	137_L	0.619	1.00
88_D	91_Y	0.617	1.00
127_E	130_D	0.615	1.00
114_R	119_K	0.613	1.00
42_F	47_V	0.609	1.00
82_L	91_Y	0.609	1.00
83_E	94_E	0.609	1.00
14_I	65_Q	0.607	1.00
84_K	87_K	0.606	1.00
24_D	208_K	0.602	1.00
154_E	160_A	0.600	1.00
118_E	125_K	0.596	1.00
17_Y	60_L	0.594	1.00
28_V	32_L	0.589	1.00
123_D	126_L	0.583	1.00
85_D	91_Y	0.581	1.00
82_L	94_E	0.578	1.00
137_L	145_L	0.576	1.00
6_S	10_Q	0.573	1.00
112_S	119_K	0.573	1.00
84_K	94_E	0.573	1.00
205_S	215_L	0.573	1.00
102_E	106_K	0.570	1.00
16_D	197_Q	0.568	1.00
123_D	128_L	0.566	1.00
153_S	158_L	0.563	1.00
120_L	129_L	0.563	1.00
155_K	160_A	0.557	1.00
97_K	106_K	0.555	1.00
102_E	107_L	0.554	1.00
120_L	126_L	0.552	1.00
152_E	157_I	0.551	1.00
27_Q	206_R	0.550	1.00
133_L	141_K	0.549	1.00
122_D	128_L	0.543	1.00
184_V	188_E	0.542	1.00
131_K	135_S	0.541	1.00
130_D	133_L	0.541	1.00
126_L	129_L	0.538	1.00
154_E	164_F	0.537	1.00
99_E	102_E	0.537	1.00
30_D	202_R	0.535	1.00
151_D	156_R	0.535	1.00
135_S	140_L	0.533	1.00
161_Y	168_L	0.532	1.00
162_E	165_K	0.532	1.00
182_I	187_L	0.528	1.00
211_S	214_D	0.525	1.00
119_K	126_L	0.525	1.00
160_A	168_L	0.523	1.00
96_N	103_E	0.523	1.00
213_A	216_L	0.520	1.00
84_K	88_D	0.517	1.00
99_E	103_E	0.516	1.00
139_S	145_L	0.510	1.00
140_L	143_K	0.506	1.00
121_I	126_L	0.504	1.00
123_D	129_L	0.502	1.00
96_N	101_D	0.501	1.00
113_D	120_L	0.501	1.00
179_K	182_I	0.500	1.00
100_E	105_F	0.500	1.00

Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

Text file of predictions (all 3L/2 predictions)
Generate restraints for ROSETTA Structure Modeling
Upload PDB model overlay contacts on the model

HHsearch Results:

Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.

PDB	Chains	Cov	%	HHΔ
1xw3A	1	0.4434	88.8	0.865	Contact Map
1yzsA	1	0.4434	86.3	0.87	Contact Map
1vz0A	3	0.8371	48.8	0.903	Contact Map
4umkA	2	0.8281	34.5	0.911	Contact Map
1vk1A	1	0.5928	5.9	0.937	Contact Map
1w2lA	1	0.1629	2.1	0.95	Contact Map
3skqA	1	0.276	2	0.951	Contact Map
1k6oB	2	0.2127	1.9	0.951	Contact Map
2l02A	2	0.1538	1.8	0.952	Contact Map
1cchA	1	0.1584	1.7	0.952	Contact Map

Sequence Conservation (Image Generated using WebLogo v3)

Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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